miRNA display CGI


Results 1 - 16 of 16 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
7343 3' -55 NC_001900.1 + 42945 0.65 0.758149
Target:  5'- aCUCGgGGuuGgcugCCUCGAUCugGGccaGCa -3'
miRNA:   3'- gGAGCgCCcuCa---GGAGCUAGugCU---UG- -5'
7343 3' -55 NC_001900.1 + 33665 0.66 0.74162
Target:  5'- gCCUUGUGGGcgugguggccaaggcGcaugucgccGUCUUCGAUCACGAc- -3'
miRNA:   3'- -GGAGCGCCC---------------U---------CAGGAGCUAGUGCUug -5'
7343 3' -55 NC_001900.1 + 8855 0.66 0.726925
Target:  5'- uCUUCGCGGGcca-CUCGAUgGgGGGCg -3'
miRNA:   3'- -GGAGCGCCCucagGAGCUAgUgCUUG- -5'
7343 3' -55 NC_001900.1 + 41100 0.66 0.716313
Target:  5'- aCCUCGCGGccguGGaCCUUGGUCuCGAu- -3'
miRNA:   3'- -GGAGCGCCc---UCaGGAGCUAGuGCUug -5'
7343 3' -55 NC_001900.1 + 44441 0.66 0.716313
Target:  5'- uCCUgGcCGGGAGUCCccCGccaCGCGAAg -3'
miRNA:   3'- -GGAgC-GCCCUCAGGa-GCua-GUGCUUg -5'
7343 3' -55 NC_001900.1 + 30114 0.66 0.705619
Target:  5'- uCCUCGCGG---UCCUUGAUCGacAGCg -3'
miRNA:   3'- -GGAGCGCCcucAGGAGCUAGUgcUUG- -5'
7343 3' -55 NC_001900.1 + 10554 0.67 0.694854
Target:  5'- aCUCGCGGGAcauggCGAUCACcGAAg -3'
miRNA:   3'- gGAGCGCCCUcaggaGCUAGUG-CUUg -5'
7343 3' -55 NC_001900.1 + 28890 0.67 0.694854
Target:  5'- aCCUUGCcgucGGGAGUCC--GAaCACGAAa -3'
miRNA:   3'- -GGAGCG----CCCUCAGGagCUaGUGCUUg -5'
7343 3' -55 NC_001900.1 + 702 0.67 0.681857
Target:  5'- gCCUCugGCGGGAcaugccacgggCCgcagCGGUCugGAACg -3'
miRNA:   3'- -GGAG--CGCCCUca---------GGa---GCUAGugCUUG- -5'
7343 3' -55 NC_001900.1 + 10360 0.67 0.6513
Target:  5'- aUUCGUGGGAGauccacUCCcUGGUCAUGAGa -3'
miRNA:   3'- gGAGCGCCCUC------AGGaGCUAGUGCUUg -5'
7343 3' -55 NC_001900.1 + 32376 0.67 0.6513
Target:  5'- aCCUCG-GGcAG-CCUCGGUCuuGAGCu -3'
miRNA:   3'- -GGAGCgCCcUCaGGAGCUAGugCUUG- -5'
7343 3' -55 NC_001900.1 + 25806 0.68 0.585631
Target:  5'- uCCUUGCGGcGGaUCUCGAUCAgcucacCGAACc -3'
miRNA:   3'- -GGAGCGCCcUCaGGAGCUAGU------GCUUG- -5'
7343 3' -55 NC_001900.1 + 36653 0.68 0.585631
Target:  5'- -gUUGCGGGuGaucUCCUCGGcgaagaccUCACGGACc -3'
miRNA:   3'- ggAGCGCCCuC---AGGAGCU--------AGUGCUUG- -5'
7343 3' -55 NC_001900.1 + 4703 0.69 0.542496
Target:  5'- aCUCGaCGGGA-UCCUgGuUCGCGGAUa -3'
miRNA:   3'- gGAGC-GCCCUcAGGAgCuAGUGCUUG- -5'
7343 3' -55 NC_001900.1 + 40026 0.71 0.440325
Target:  5'- uUCUUGCuGGAGUCCUUGGugaccuugcgaaUCGCGAugGCg -3'
miRNA:   3'- -GGAGCGcCCUCAGGAGCU------------AGUGCU--UG- -5'
7343 3' -55 NC_001900.1 + 35007 1.12 0.000668
Target:  5'- cCCUCGCGGGAGUCCUCGAUCACGAACg -3'
miRNA:   3'- -GGAGCGCCCUCAGGAGCUAGUGCUUG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.